Subset quantile normalization using negative control features.

ABSTRACT: Normalization has been recognized as a necessary preprocessing step in a variety of high-throughput biotechnologies. A number of normalization methods have been developed specifically for microarrays, some general and others tailored for certain experimental designs. All methods rely on assumptions about data characteristics that are expected to stay constant across samples, although some make it more explicit than others. Most methods make assumptions that certain quantities related to the biological signal of interest stay the same; this is reasonable for many experiments but usually not verifiable. Recently, several platforms have begun to include a large number of negative control probes that nonetheless cover nearly the entire range of the measured signal intensity. Using these probes

SUBMITTER: Wu Z 

PROVIDER: S-EPMC3122888 | biostudies-literature | 2010 Oct

REPOSITORIES: biostudies-literature